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A Con Artist: Phenylphenoxybenzamide is not a Glycosyltransferase Inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3VMQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 278.15 100 mM MgCl2, 100 mM Na HEPES pH 8, and 16 % wt/vol PEG400 (Sigma)
Crystal Properties Matthews coefficient Solvent content 3 63.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 153.88 α = 90 b = 39.64 β = 90 c = 55.83 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 CCD RAYONIX MX300HE 2015-08-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL15A1 0.97622 NSRRC BL15A1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.64 30 51 9.1 2.1 8774
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.64 2.71 51 0.44 3.5 2.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3VMQ 2.64 30 8281 465 82.55 0.2493 0.2451 0.2502 0.3273 0.3333 RANDOM 39.947
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -1.99 2.3 -0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.314 r_dihedral_angle_3_deg 21.154 r_dihedral_angle_4_deg 9.46 r_dihedral_angle_1_deg 6.872 r_angle_refined_deg 2.142 r_angle_other_deg 1.238 r_chiral_restr 0.13 r_bond_refined_d 0.021 r_gen_planes_refined 0.008 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.314 r_dihedral_angle_3_deg 21.154 r_dihedral_angle_4_deg 9.46 r_dihedral_angle_1_deg 6.872 r_angle_refined_deg 2.142 r_angle_other_deg 1.238 r_chiral_restr 0.13 r_bond_refined_d 0.021 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1497 Nucleic Acid Atoms Solvent Atoms 6 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction iMOSFLM data reduction SCALA data scaling PHASER phasing